EDGAR: A software framework for the comparative analysis of prokaryotic genomes. - Jochen Blom; Stefan P. Albaum; Daniel Doppmeier; Alfred Pühler; Frank-Jörg Vorhölter; Martha Zakrzewski; Alexander Goesmann (BMC Bioinform., 2009)

Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming. - Jochen Blom; Tobias Jakobi; Daniel Doppmeier; Sebastian Jaenicke; Jörn Kalinowski; Jens Stoye; Alexander Goesmann (Bioinform., 2011)

ReadXplorer - visualization and analysis of mapped sequences. - Rolf Hilker; Kai Bernd Stadermann; Daniel Doppmeier; Jörn Kalinowski; Jens Stoye; Jasmin Straube; Jörn Winnebald; Alexander Goesmann (Bioinform., 2014)